Locus 4316

Sequence ID 3R_DroMel_CAF1
Location 11,438,985 – 11,439,105
Length 120
Max. P 0.793814
window7042

overview

Window 2

Location 11,438,985 – 11,439,105
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.92
Mean single sequence MFE -28.25
Consensus MFE -24.86
Energy contribution -24.38
Covariance contribution -0.48
Combinations/Pair 1.16
Mean z-score -1.47
Structure conservation index 0.88
SVM decision value 0.59
SVM RNA-class probability 0.793814
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11438985 120 + 27905053
AACACAAAAAAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUAUCGCGAAAAAACACAGAAAGGAGGGAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
(((((((((.....(((((((((....).)))..(((((.....(.(((((((............))))))))...)))))))))).....((((......))))..))))))))).... ( -26.40)
>DroSec_CAF1 179082 120 + 1
AACACAAAAAAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUAUCGCGAAAAAAUACAAAAAGGAGGAAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
(((((((((...........(((((((((.((.........)).)))).......(((((((.........)))))))...))))).....((((......))))..))))))))).... ( -25.80)
>DroSim_CAF1 173260 120 + 1
AACACAAAAAAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUAUCGCGAAAAAAUACAAAAAGGAGGAAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
(((((((((...........(((((((((.((.........)).)))).......(((((((.........)))))))...))))).....((((......))))..))))))))).... ( -25.80)
>DroEre_CAF1 168630 119 + 1
AACACAAAAUAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUAUCGCGAAAAAA-GCGGAAAGGAGGAAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
((((((((((.....((((.(((....(((..........))).(((((((((............)))))))-)))))...))))......((((......)))).)))))))))).... ( -32.00)
>DroYak_CAF1 171979 120 + 1
AACACAAAAUAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUGUCGCGAAAAAAUACGGAAAGGAGGAAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
((((((((((.....((((.(((..((((....))))...((((((..............)))))).........)))...))))......((((......)))).)))))))))).... ( -31.24)
>consensus
AACACAAAAAAUAACCCUCGUCCUCAGGCGGCAGCUUUCACGCGGCUUUUUUCAAUUUGUAUCGCGAAAAAAUACAGAAAGGAGGAAAAACUCAUUCAACUGUGACAUUUUGUGUUUUGU
(((((((((...........(((((((((.((.........)).)))).......(((((((.........)))))))...))))).....((((......))))..))))))))).... (-24.86 = -24.38 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:50 2006